Allen Wuming Song | Scholars@Duke

Allen Wuming Song
Professor in Radiology

The research in our lab is concerned with advancing structural and functional MRI methodologies (e.g. fast and high-resolution imaging techniques) for human brain imaging. We also aim to improve our understanding of functional brain signals, including spatiotemporal characterizations of the blood oxygenation level dependent contrast and alternative contrast mechanisms that are more directly linked to the neuronal activities. Additional effort is invested in applying and validating the developed methods to study human functional neuroanatomy.

Current Appointments & Affiliations

Professor in Radiology, Radiology, Clinical Science Departments 2006
Director of the Center for Brain Imaging and Analysis, Duke-UNC Center for Brain Imaging and Analysis, Institutes and Centers 2006
Professor in Psychiatry and Behavioral Sciences, Psychiatry & Behavioral Sciences, Clinical Science Departments 2006
Professor in Neurobiology, Neurobiology, Basic Science Departments 2007
Member of the Duke Cancer Institute, Duke Cancer Institute, Institutes and Centers 1999
Faculty Network Member of the Duke Institute for Brain Sciences, Duke Institute for Brain Sciences, University Institutes and Centers 2008

Contact Information

40 Duke Medicine Circle, Davison 414, Box 3918, Durham, NC 27710
Brain Imaging and Analysis Ctr, Box 3918, Durham, NC 27710
allen.song@duke.edu (919) 684-1215

Background
Education, Training, & Certifications
- Assistant Professor of Radiology, Tenure Track, Radiology, Emory University 1997 - 1999
- Visiting Fellow, Laboratory Of Brain And Cognition, National Institutes of Health 1996
- Ph.D., Medical College of Wisconsin 1995
Duke Appointment History
- Professor of Biomedical Engineering, Biomedical Engineering, Pratt School of Engineering 2006 - 2018
- Interim Director of the Duke Institute for Brain Sciences, Duke Institute for Brain Sciences, University Institutes and Centers 2015 - 2016
- Associate Director of the Center for Brain Imaging and Analysis, Duke-UNC Center for Brain Imaging and Analysis, Institutes and Centers 1999 - 2006
- Associate Professor in Radiology, Radiology, Clinical Science Departments 2003 - 2006
- Associate Professor in Biomedical Engineering, Biomedical Engineering, Pratt School of Engineering 2004 - 2005
- Assistant Professor in Radiology, Radiology, Clinical Science Departments 1999 - 2003
- Instructor, Temporary in the Department of Radiology, Radiology, Clinical Science Departments 1999
Recognition
In the News
- JUN 26, 2015
  
  Allen Song Named Interim Director of Brain Institute
- OCT 13, 2014 Duke Research Blog
  
  NIH Getting Serious About the Brain
- OCT 1, 2014
  
  Duke Researchers Among the First Funded In President’s BRAIN Initiative
Awards & Honors
- Faculty Early Career Development (CAREER) Program. National Science Foundation. 2001
Research
Selected Grants
- Neurobiology Training Program awarded by National Institutes of Health 2019 - 2024
- Role of cannabis on HIV-related cognitive impairment: a brain connectomics study awarded by National Institutes of Health 2018 - 2023
- Neuroimaging of Visual Attention in Aging awarded by National Institutes of Health 2011 - 2023
- MRI data fusion to investigate effects of drug abuse on HIV neurological complications awarded by National Institutes of Health 2018 - 2023
- NCANDA Research Project Site: Duke awarded by National Institutes of Health 2012 - 2022
- NCANDA Research Project Site: Duke awarded by National Institutes of Health 2012 - 2022
- High Fidelity Diffusion MRI for Children with Cerebral Palsy in Stem Cell Therapy awarded by National Institutes of Health 2012 - 2022
- High Fidelity Diffusion MRI for Children with Cerebral Palsy in Stem Cell Therapy awarded by National Institutes of Health 2012 - 2022
- CRCNS: Geometry-based Brain Connectome Analysis awarded by National Institutes of Health 2018 - 2021
- CRCNS: Geometry-based Brain Connectome Analysis awarded by National Institutes of Health 2018 - 2021
- Oncogenic Signaling Networks awarded by Department of Defense 2012 - 2020
- Integrated RF/shim body coil array for MRI with localized shimming awarded by National Institutes of Health 2017 - 2020
- Whole Eye Optical Coherence Tomography to Improve Refractive Surgery and Eye Care awarded by National Institutes of Health 2014 - 2019
- High Resolution Intracortical DTI for Early Detection of Alzheimer¿s Disease 2016 - 2019
- Quantitative Susceptibility Mapping of Iron Accumulation in Neurocognitive Aging awarded by National Institutes of Health 2017 - 2019
- The Modulatory Role of Reward on Attentional Brain Processes awarded by National Institutes of Health 2006 - 2019
- Training in Medical Imaging awarded by National Institutes of Health 2003 - 2019
- High-Resolution Diffusion Weighted MRI 2014 - 2019
- Integrated Parallel Reception, Excitation, and Bo Shimming 2016 - 2018
- Basic predoctoral training in neuroscience awarded by National Institutes of Health 1992 - 2018
- Path Toward MRI with Direct Sensitivity to Neuro-Electro-Magnetic Oscillations awarded by National Institutes of Health 2014 - 2018
- Motion-immune neuro and body MRI for challenging patient populations awarded by National Institutes of Health 2014 - 2018
- Imaging of Intrinsic Connectivity Networks awarded by National Institutes of Health 2011 - 2018
- Magnetic resonance imaging with inherent local shimming awarded by National Institutes of Health 2015 - 2018
- FAST- MAS Phase 2A awarded by National Institutes of Health 2013 - 2017
- An Analysis of Psychosocial Risk and Protective Factors: Accelerated Cognitive Aging and Mild Traumatic Brain Injury (MTBI) Among Retired NFL & Former NCAA Football Players awarded by National Institutes of Health 2017
- MRI & Data Analysis Services for MIRECC 2015 - 2017
- Neural circuits that regulate social motivation awarded by University of North Carolina - Chapel Hill 2013 - 2017
- Consequences of prolonged febrile seizures in childhood 2013 - 2017
- A Compute Cluster for Brain Imaging and Analysis awarded by National Institutes of Health 2016 - 2017
- Susceptibility MRI as a marker for diagnosis and clinical disability in MS awarded by National Institutes of Health 2014 - 2017
- Research Training In Neuro-Oncology awarded by National Institutes of Health 1998 - 2016
- High-resolution in vivo and non-invasive imaging of myocardial fibers awarded by National Institutes of Health 2014 - 2016
- Pathways From Maltreatment to Substance Abuse awarded by National Institutes of Health 2010 - 2016
- Restricted Repetitive Behavior in Autism awarded by University of North Carolina - Chapel Hill 2011 - 2016
- Training in Fundamental &Translational Neuroscience awarded by National Institutes of Health 2005 - 2016
- Direct MRI of Neuroelectric Activity for Animal Neuroimaging awarded by National Institutes of Health 2011 - 2016
- Multidisciplinary Neonatal Training Grant awarded by National Institutes of Health 2010 - 2015
- Imaging Genetic Predictors of Psychotherapy Outcomes in Unipolar Depression awarded by National Institutes of Health 2012 - 2015
- Neuroimaging of Age-Related Changes in Language awarded by National Institutes of Health 2010 - 2015
- Magnetic Resonance Imaging of Cortical Neuronal Activity awarded by National Institutes of Health 2010 - 2015
- Studies of Attention Using Combined ERPs and fMRI awarded by National Institutes of Health 2001 - 2015
- Network Plasticity in Pediatric Traumatic Brain Injury 2013 - 2014
- Environments as Smoking Cues: Imaging Brain Substrates, Developing New Treatments awarded by National Institutes of Health 2012 - 2014
- Cross-disciplinary Training in Medical Physics awarded by National Institutes of Health 2007 - 2013
- Longitudinal Functional Imaging of Early Childhood Anxiety Disorders awarded by National Institutes of Health 2008 - 2013
- High Resolution Diffusion-Weighted Magnetic Resonance Imaging at 300-Micron Level awarded by National Institutes of Health 2006 - 2012
- Human Functional Brain Anatomy awarded by National Institutes of Health 2001 - 2012
- Myelin-Specific Diffusion Tensor Imaging for Developmental Neuroimaging awarded by National Institutes of Health 2009 - 2012
- Neural correlates of working memory in children with 22q11.2 deletion syndrome awarded by National Institutes of Health 2010 - 2011
- Precision Targeting of fMRI-Guided TMS Using a Robotic Arm System awarded by National Institutes of Health 2010 - 2011
- Research Training In Neuro-Oncology awarded by National Institutes of Health 2005 - 2010
- Multisensory Processing and Attention awarded by National Science Foundation 2005 - 2010
- K-Space Energy Spectrum Analysis for Echo-Planar Imaging awarded by National Institutes of Health 2007 - 2010
- Direct MRI of Neuroelectric Activity awarded by National Science Foundation 2006 - 2010
- A Linux Cluster Computational Facility for Neuroimaging Research awarded by National Institutes of Health 2009 - 2010
- High Fidelity fMRI awarded by National Institutes of Health 2004 - 2010
- IPA - Francis Favorini awarded by Veterans Administration Medical Center 2007 - 2009
- Neuroimaging of Executive Processing awarded by National Institutes of Health 2005 - 2009
- Neuroimaging Attentional Impairment During Abstinence awarded by National Institutes of Health 2004 - 2009
- IPA - Jacquelynn Price awarded by Veterans Administration Medical Center 2006 - 2008
- Spatiotemporal Dynamics of Emotional Memory Networks awarded by National Institutes of Health 2001 - 2007
- Improved Image Acquisition for Functional Magnetic Resonance Imaging awarded by National Science Foundation 2001 - 2006
- Combined PET and ERP Studies of Selective Attention 1997 - 2000
Publications & Artistic Works
Selected Publications
- Academic Articles
  - Truong, Trong-Kha, Kenneth C. Roberts, Marty G. Woldorff, and Allen W. Song. “Toward direct MRI of neuro-electro-magnetic oscillations in the human brain..” Magn Reson Med 81, no. 6 (June 2019): 3462–75. https://doi.org/10.1002/mrm.27654.
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  - Darnell, Dean, Jonathan Cuthbertson, Fraser Robb, Allen W. Song, and Trong-Kha Truong. “Integrated radio-frequency/wireless coil design for simultaneous MR image acquisition and wireless communication..” Magn Reson Med 81, no. 3 (March 2019): 2176–83. https://doi.org/10.1002/mrm.27513.
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  - Carpenter, Kimberly L. H., Samantha Major, Catherine Tallman, Lyon W. Chen, Lauren Franz, Jessica Sun, Joanne Kurtzberg, Allen Song, and Geraldine Dawson. “White Matter Tract Changes Associated with Clinical Improvement in an Open-Label Trial Assessing Autologous Umbilical Cord Blood for Treatment of Young Children with Autism..” Stem Cells Transl Med 8, no. 2 (February 2019): 138–47. https://doi.org/10.1002/sctm.18-0251.
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  - Bruce, Iain P., Christopher Petty, and Allen W. Song. “Simultaneous and inherent correction of B0 and eddy-current induced distortions in high-resolution diffusion MRI using reversed polarity gradients and multiplexed sensitivity encoding (RPG-MUSE)..” Neuroimage 183 (December 2018): 985–93. https://doi.org/10.1016/j.neuroimage.2018.09.055.
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  - Bell, Ryan P., Laura L. Barnes, Sheri L. Towe, Nan-Kuei Chen, Allen W. Song, and Christina S. Meade. “Structural connectome differences in HIV infection: brain network segregation associated with nadir CD4 cell count..” J Neurovirol 24, no. 4 (August 2018): 454–63. https://doi.org/10.1007/s13365-018-0634-4.
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  - Darnell, Dean, Yixin Ma, Hongyuan Wang, Fraser Robb, Allen W. Song, and Trong-Kha Truong. “Adaptive integrated parallel reception, excitation, and shimming (iPRES-A) with microelectromechanical systems switches..” Magn Reson Med 80, no. 1 (July 2018): 371–79. https://doi.org/10.1002/mrm.27007.
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  - Shokur, Solaiman, Ana R. C. Donati, Debora S. F. Campos, Claudia Gitti, Guillaume Bao, Dora Fischer, Sabrina Almeida, et al. “Training with brain-machine interfaces, visuo-tactile feedback and assisted locomotion improves sensorimotor, visceral, and psychological signs in chronic paraplegic patients..” Plos One 13, no. 11 (2018). https://doi.org/10.1371/journal.pone.0206464.
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  - Sun, Jessica M., Allen W. Song, Laura E. Case, Mohamad A. Mikati, Kathryn E. Gustafson, Ryan Simmons, Ricki Goldstein, et al. “Effect of Autologous Cord Blood Infusion on Motor Function and Brain Connectivity in Young Children with Cerebral Palsy: A Randomized, Placebo-Controlled Trial..” Stem Cells Transl Med 6, no. 12 (December 2017): 2071–78. https://doi.org/10.1002/sctm.17-0102.
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  - Bruce, Iain P., Hing-Chiu Chang, Christopher Petty, Nan-Kuei Chen, and Allen W. Song. “3D-MB-MUSE: A robust 3D multi-slab, multi-band and multi-shot reconstruction approach for ultrahigh resolution diffusion MRI..” Neuroimage 159 (October 1, 2017): 46–56. https://doi.org/10.1016/j.neuroimage.2017.07.035.
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  - Green, Jessica J., Carsten N. Boehler, Kenneth C. Roberts, Ling-Chia Chen, Ruth M. Krebs, Allen W. Song, and Marty G. Woldorff. “Cortical and Subcortical Coordination of Visual Spatial Attention Revealed by Simultaneous EEG-fMRI Recording..” J Neurosci 37, no. 33 (August 16, 2017): 7803–10. https://doi.org/10.1523/JNEUROSCI.0326-17.2017.
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  - Hu, Zhangxuan, Xiaodong Ma, Trong-Kha Truong, Allen W. Song, and Hua Guo. “Phase-updated regularized SENSE for navigator-free multishot diffusion imaging..” Magn Reson Med 78, no. 1 (July 2017): 172–81. https://doi.org/10.1002/mrm.26361.
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  - Gallentine, William B., Shlomo Shinnar, Dale C. Hesdorffer, Leon Epstein, Douglas R. Nordli, Darrell V. Lewis, L Matthew Frank, et al. “Plasma cytokines associated with febrile status epilepticus in children: A potential biomarker for acute hippocampal injury..” Epilepsia 58, no. 6 (June 2017): 1102–11. https://doi.org/10.1111/epi.13750.
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  - Darnell, Dean, Trong-Kha Truong, and Allen W. Song. “Integrated parallel reception, excitation, and shimming (iPRES) with multiple shim loops per radio-frequency coil element for improved B0 shimming..” Magn Reson Med 77, no. 5 (May 2017): 2077–86. https://doi.org/10.1002/mrm.26267.
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  - Chou, Ying-Hui, Mark Sundman, Heather E. Whitson, Pooja Gaur, Mei-Lan Chu, Carol P. Weingarten, David J. Madden, et al. “Maintenance and Representation of Mind Wandering during Resting-State fMRI..” Sci Rep 7 (January 12, 2017). https://doi.org/10.1038/srep40722.
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  - Harrell, Waverly, Ling Zou, Zoe Englander, Stephen R. Hooper, Matcheri S. Keshavan, Allen Song, and Vandana Shashi. “Frontal Hypoactivation During a Working Memory Task in Children With 22q11 Deletion Syndrome..” J Child Neurol 32, no. 1 (January 2017): 94–99. https://doi.org/10.1177/0883073816670813.
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  - Hesdorffer, Dale C., Shlomo Shinnar, Daniel N. Lax, John M. Pellock, Douglas R. Nordli, Syndi Seinfeld, William Gallentine, et al. “Risk factors for subsequent febrile seizures in the FEBSTAT study..” Epilepsia 57, no. 7 (July 2016): 1042–47. https://doi.org/10.1111/epi.13418.
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  - Guhaniyogi, Shayan, Mei-Lan Chu, Hing-Chiu Chang, Allen W. Song, and Nan-Kuei Chen. “Motion immune diffusion imaging using augmented MUSE for high-resolution multi-shot EPI..” Magn Reson Med 75, no. 2 (February 2016): 639–52. https://doi.org/10.1002/mrm.25624.
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  - Chang, Hing-Chiu, Mark Sundman, Laurent Petit, Shayan Guhaniyogi, Mei-Lan Chu, Christopher Petty, Allen W. Song, and Nan-kuei Chen. “Human brain diffusion tensor imaging at submillimeter isotropic resolution on a 3Tesla clinical MRI scanner..” Neuroimage 118 (September 2015): 667–75. https://doi.org/10.1016/j.neuroimage.2015.06.016.
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  - Chou, Ying-hui, Patrick T. Hickey, Mark Sundman, Allen W. Song, and Nan-kuei Chen. “Effects of repetitive transcranial magnetic stimulation on motor symptoms in Parkinson disease: a systematic review and meta-analysis..” Jama Neurol 72, no. 4 (April 2015): 432–40. https://doi.org/10.1001/jamaneurol.2014.4380.
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  - Li, Wei, Christian Langkammer, Ying-Hui Chou, Katja Petrovic, Reinhold Schmidt, Allen W. Song, David J. Madden, Stefan Ropele, and Chunlei Liu. “Association between increased magnetic susceptibility of deep gray matter nuclei and decreased motor function in healthy adults..” Neuroimage 105 (January 15, 2015): 45–52. https://doi.org/10.1016/j.neuroimage.2014.10.009.
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  - Carpenter, Kimberly L. H., Adrian Angold, Nan-Kuei Chen, William E. Copeland, Pooja Gaur, Kevin Pelphrey, Allen W. Song, and Helen L. Egger. “Preschool anxiety disorders predict different patterns of amygdala-prefrontal connectivity at school-age..” Plos One 10, no. 1 (2015). https://doi.org/10.1371/journal.pone.0116854.
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  - Englander, Zoë A., Jessica Sun, Jessica Laura Case, Mohamad A. Mikati, Joanne Kurtzberg, and Allen W. Song. “Brain structural connectivity increases concurrent with functional improvement: evidence from diffusion tensor MRI in children with cerebral palsy during therapy..” Neuroimage Clin 7 (2015): 315–24. https://doi.org/10.1016/j.nicl.2015.01.002.
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  - Truong, Trong-Kha, Allen W. Song, and Nan-Kuei Chen. “Correction for Eddy Current-Induced Echo-Shifting Effect in Partial-Fourier Diffusion Tensor Imaging..” Biomed Res Int 2015 (2015). https://doi.org/10.1155/2015/185026.
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  - Truong, Trong-Kha, Dean Darnell, and Allen W. Song. “Integrated RF/shim coil array for parallel reception and localized B0 shimming in the human brain..” Neuroimage 103 (December 2014): 235–40. https://doi.org/10.1016/j.neuroimage.2014.09.052.
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  - Song, Allen W., Hing-Chiu Chang, Christopher Petty, Arnaud Guidon, and Nan-Kuei Chen. “Improved delineation of short cortical association fibers and gray/white matter boundary using whole-brain three-dimensional diffusion tensor imaging at submillimeter spatial resolution..” Brain Connect 4, no. 9 (November 2014): 636–40. https://doi.org/10.1089/brain.2014.0270.
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  - Li, Wei, Bing Wu, Anastasia Batrachenko, Vivian Bancroft-Wu, Rajendra A. Morey, Vandana Shashi, Christian Langkammer, et al. “Differential developmental trajectories of magnetic susceptibility in human brain gray and white matter over the lifespan..” Hum Brain Mapp 35, no. 6 (June 2014): 2698–2713. https://doi.org/10.1002/hbm.22360.
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  - Avram, Alexandru V., Arnaud Guidon, Trong-Kha Truong, Chunlei Liu, and Allen W. Song. “Dynamic and inherent B0 correction for DTI using stimulated echo spiral imaging..” Magn Reson Med 71, no. 3 (March 2014): 1044–53. https://doi.org/10.1002/mrm.24767.
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  - Younes, Laurent, J Tilak Ratnanather, Timothy Brown, Elizabeth Aylward, Peg Nopoulos, Hans Johnson, Vincent A. Magnotta, et al. “Regionally selective atrophy of subcortical structures in prodromal HD as revealed by statistical shape analysis..” Hum Brain Mapp 35, no. 3 (March 2014): 792–809. https://doi.org/10.1002/hbm.22214.
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  - Truong, Trong-Kha, Arnaud Guidon, and Allen W. Song. “Cortical depth dependence of the diffusion anisotropy in the human cortical gray matter in vivo..” Plos One 9, no. 3 (2014). https://doi.org/10.1371/journal.pone.0091424.
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  - Han, Hui, Allen W. Song, and Trong-Kha Truong. “Integrated parallel reception, excitation, and shimming (iPRES)..” Magn Reson Med 70, no. 1 (July 2013): 241–47. https://doi.org/10.1002/mrm.24766.
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  - Chen, Nan-Kuei, Arnaud Guidon, Hing-Chiu Chang, and Allen W. Song. “A robust multi-shot scan strategy for high-resolution diffusion weighted MRI enabled by multiplexed sensitivity-encoding (MUSE)..” Neuroimage 72 (May 15, 2013): 41–47. https://doi.org/10.1016/j.neuroimage.2013.01.038.
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  - Englander, Zoë A., Carolyn E. Pizoli, Anastasiya Batrachenko, Jessica Sun, Gordon Worley, Mohamad A. Mikati, Joanne Kurtzberg, and Allen W. Song. “Diffuse reduction of white matter connectivity in cerebral palsy with specific vulnerability of long range fiber tracts..” Neuroimage Clin 2 (2013): 440–47. https://doi.org/10.1016/j.nicl.2013.03.006.
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  - Truong, Trong-Kha, Nan-kuei Chen, and Allen W. Song. “Inherent correction of motion-induced phase errors in multishot spiral diffusion-weighted imaging..” Magn Reson Med 68, no. 4 (October 2012): 1255–61. https://doi.org/10.1002/mrm.24124.
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  - Dichter, Gabriel S., Linmarie Sikich, Allen Song, James Voyvodic, and James W. Bodfish. “Functional neuroimaging of treatment effects in psychiatry: methodological challenges and recommendations..” Int J Neurosci 122, no. 9 (September 2012): 483–93. https://doi.org/10.3109/00207454.2012.678446.
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  - Mani, M., M. Jacob, A. Guidon, C. Liu, A. Song, V. Magnotta, and J. Zhong. “Acceleration of high angular and spatial resolution diffusion imaging using compressed sensing.” Proceedings International Symposium on Biomedical Imaging, August 15, 2012, 326–29. https://doi.org/10.1109/ISBI.2012.6235550.
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  - Song, Allen W. “Diffusion modulation of the fMRI signal: early investigations on the origin of the BOLD signal..” Neuroimage 62, no. 2 (August 2012): 949–52. https://doi.org/10.1016/j.neuroimage.2012.01.001.
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  - Krebs, Ruth M., Carsten N. Boehler, Kenneth C. Roberts, Allen W. Song, and Marty G. Woldorff. “The involvement of the dopaminergic midbrain and cortico-striatal-thalamic circuits in the integration of reward prospect and attentional task demands..” Cereb Cortex 22, no. 3 (March 2012): 607–15. https://doi.org/10.1093/cercor/bhr134.
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  - Madden, David J., Ilana J. Bennett, Agnieszka Burzynska, Guy G. Potter, Nan-Kuei Chen, and Allen W. Song. “Diffusion tensor imaging of cerebral white matter integrity in cognitive aging..” Biochim Biophys Acta 1822, no. 3 (March 2012): 386–400. https://doi.org/10.1016/j.bbadis.2011.08.003.
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  - Chen, Nan-Kuei, Alexandru V. Avram, and Allen W. Song. “Two-dimensional phase cycled reconstruction for inherent correction of echo-planar imaging Nyquist artifacts..” Magn Reson Med 66, no. 4 (October 2011): 1057–66. https://doi.org/10.1002/mrm.22896.
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  - Truong, Trong-Kha, Nan-kuei Chen, and Allen W. Song. “Dynamic correction of artifacts due to susceptibility effects and time-varying eddy currents in diffusion tensor imaging..” Neuroimage 57, no. 4 (August 15, 2011): 1343–47. https://doi.org/10.1016/j.neuroimage.2011.06.008.
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  - Holt, Rebecca L., James M. Provenzale, Aravindhan Veerapandiyan, Won-Jin Moon, Michael D. De Bellis, Soren Leonard, William B. Gallentine, et al. “Structural connectivity of the frontal lobe in children with drug-resistant partial epilepsy..” Epilepsy & Behavior : E&B 21, no. 1 (May 2011): 65–70. https://doi.org/10.1016/j.yebeh.2011.03.016.
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  - Avram, Alexandru V., Arnaud Guidon, and Allen W. Song. “Myelin water weighted diffusion tensor imaging..” Neuroimage 53, no. 1 (October 2010): 132–38. https://doi.org/10.1016/j.neuroimage.2010.06.019.
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  - Truong, Trong-Kha, Nan-Kuei Chen, and Allen W. Song. “Application of k-space energy spectrum analysis for inherent and dynamic B0 mapping and deblurring in spiral imaging..” Magn Reson Med 64, no. 4 (October 2010): 1121–27. https://doi.org/10.1002/mrm.22485.
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  - Heng, Serene, Allen W. Song, and Kang Sim. “White matter abnormalities in bipolar disorder: insights from diffusion tensor imaging studies..” J Neural Transm (Vienna) 117, no. 5 (May 2010): 639–54. https://doi.org/10.1007/s00702-010-0368-9.
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  - Song, A. W., and T. K. Truong. “Apparent diffusion coefficient dependent fMRI: Spatiotemporal characteristics and implications on calibrated fMRI.” International Journal of Imaging Systems and Technology 20, no. 1 (March 1, 2010): 42–50. https://doi.org/10.1002/ima.20220.
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  - Smith, David V., Benjamin Y. Hayden, Trong-Kha Truong, Allen W. Song, Michael L. Platt, and Scott A. Huettel. “Distinct value signals in anterior and posterior ventromedial prefrontal cortex..” J Neurosci 30, no. 7 (February 17, 2010): 2490–95. https://doi.org/10.1523/JNEUROSCI.3319-09.2010.
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  - Krebs, Ruth M., Mircea A. Schoenfeld, Carsten N. Boehler, Allen W. Song, and Marty G. Woldorff. “The Saccadic Re-Centering Bias is Associated with Activity Changes in the Human Superior Colliculus..” Front Hum Neurosci 4 (2010). https://doi.org/10.3389/fnhum.2010.00193.
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  - Madden, David J., Ilana J. Bennett, and Allen W. Song. “Cerebral white matter integrity and cognitive aging: contributions from diffusion tensor imaging..” Neuropsychol Rev 19, no. 4 (December 2009): 415–35. https://doi.org/10.1007/s11065-009-9113-2.
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  - Chen, Nan-kuei, Ying-hui Chou, Allen W. Song, and David J. Madden. “Measurement of spontaneous signal fluctuations in fMRI: adult age differences in intrinsic functional connectivity..” Brain Struct Funct 213, no. 6 (October 2009): 571–85. https://doi.org/10.1007/s00429-009-0218-4.
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  - Truong, Trong-Kha, and Allen W. Song. “Cortical depth dependence and implications on the neuronal specificity of the functional apparent diffusion coefficient contrast..” Neuroimage 47, no. 1 (August 1, 2009): 65–68. https://doi.org/10.1016/j.neuroimage.2009.04.045.
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  - Venkatraman, Talaignair N., Ranga R. Krishnan, David C. Steffens, Allen W. Song, and Warren D. Taylor. “Biochemical abnormalities of the medial temporal lobe and medial prefrontal cortex in late-life depression..” Psychiatry Res 172, no. 1 (April 30, 2009): 49–54. https://doi.org/10.1016/j.pscychresns.2008.07.001.
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  - Chen, N. -. K., Y. -. H. Chou, A. W. Song, and D. J. Madden. “Measurement of spontaneous signal fluctuations in fMRI: adult age differences in intrinsic functional connectivity.” Brain Structure and Function, 2009, 1–15.
  - Cohen-Adad, J., R. D. Hoge, H. Leblond, G. Xie, G. Beaudoin, A. W. Song, G. Krueger, J. Doyon, H. Benali, and S. Rossignol. “Investigations on spinal cord fMRI of cats under ketamine..” Neuroimage 44, no. 2 (January 2009): 328–39. https://doi.org/10.1016/j.neuroimage.2008.09.023.
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  - Song, Allen W., Trong-Kha Truong, and Marty Woldorff. “Dynamic MRI of small electrical activity..” Methods Mol Biol 489 (2009): 297–315. https://doi.org/10.1007/978-1-59745-543-5_14.
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  - Harshbarger, Todd B., and Allen W. Song. “Differentiating sensitivity of post-stimulus undershoot under diffusion weighting: implication of vascular and neuronal hierarchy..” Plos One 3, no. 8 (August 13, 2008). https://doi.org/10.1371/journal.pone.0002914.
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  - Truong, Trong-Kha, Alexandru Avram, and Allen W. Song. “Lorentz effect imaging of ionic currents in solution..” J Magn Reson 191, no. 1 (March 2008): 93–99. https://doi.org/10.1016/j.jmr.2007.12.005.
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  - Truong, Trong-Kha, Bin Chen, and Allen W. Song. “Integrated SENSE DTI with correction of susceptibility- and eddy current-induced geometric distortions..” Neuroimage 40, no. 1 (March 1, 2008): 53–58. https://doi.org/10.1016/j.neuroimage.2007.12.001.
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  - Chen, Bin, and Allen W. Song. “Diffusion tensor imaging fiber tracking with local tissue property sensitivity: phantom and in vivo validation..” Magn Reson Imaging 26, no. 1 (January 2008): 103–8. https://doi.org/10.1016/j.mri.2007.05.003.
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  - Truong, Trong-Kha, and Allen W. Song. “Single-shot dual-z-shimmed sensitivity-encoded spiral-in/out imaging for functional MRI with reduced susceptibility artifacts..” Magn Reson Med 59, no. 1 (January 2008): 221–27. https://doi.org/10.1002/mrm.21473.
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  - Roberts, Kenneth C., Tung T. Tran, Allen W. Song, and Marty G. Woldorff. “Component structure of event-related fMRI responses in the different neurovascular compartments..” Magn Reson Imaging 25, no. 3 (April 2007): 328–34. https://doi.org/10.1016/j.mri.2006.08.010.
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  - Song, Allen W., Hua Guo, and Trong-Kha Truong. “Single-shot ADC imaging for fMRI..” Magn Reson Med 57, no. 2 (February 2007): 417–22. https://doi.org/10.1002/mrm.21135.
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  - Harshbarger, Todd B., and Allen W. Song. “Endogenous functional CBV contrast revealed by diffusion weighting..” Nmr Biomed 19, no. 8 (December 2006): 1020–27. https://doi.org/10.1002/nbm.1067.
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  - Truong, Trong-Kha, and Allen W. Song. “Finding neuroelectric activity under magnetic-field oscillations (NAMO) with magnetic resonance imaging in vivo..” Proc Natl Acad Sci U S A 103, no. 33 (August 15, 2006): 12598–601. https://doi.org/10.1073/pnas.0605486103.
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  - Michelich, Charles R., Allen W. Song, and James R. Macfall. “Dependence of gradient-echo and spin-echo BOLD fMRI at 4 T on diffusion weighting..” Nmr Biomed 19, no. 5 (August 2006): 566–72. https://doi.org/10.1002/nbm.1035.
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  - Venkatraman, Talaignair N., Robert M. Hamer, Diana O. Perkins, Allen W. Song, Jeffrey A. Lieberman, and R Grant Steen. “Single-voxel 1H PRESS at 4.0 T: precision and variability of measurements in anterior cingulate and hippocampus..” Nmr Biomed 19, no. 4 (June 2006): 484–91. https://doi.org/10.1002/nbm.1055.
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  - Chen, Bin, Hua Guo, and Allen W. Song. “Correction for direction-dependent distortions in diffusion tensor imaging using matched magnetic field maps..” Neuroimage 30, no. 1 (March 2006): 121–29. https://doi.org/10.1016/j.neuroimage.2005.09.008.
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  - Truong, Trong-Kha, Jennifer L. Wilbur, and Allen W. Song. “Synchronized detection of minute electrical currents with MRI using Lorentz effect imaging..” J Magn Reson 179, no. 1 (March 2006): 85–91. https://doi.org/10.1016/j.jmr.2005.11.012.
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  - Segal, Richard L., and Allen W. Song. “Nonuniform activity of human calf muscles during an exercise task..” Arch Phys Med Rehabil 86, no. 10 (October 2005): 2013–17. https://doi.org/10.1016/j.apmr.2005.04.012.
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  - Huettel, Scott A., Allen W. Song, and Gregory McCarthy. “Decisions under uncertainty: probabilistic context influences activation of prefrontal and parietal cortices..” J Neurosci 25, no. 13 (March 30, 2005): 3304–11. https://doi.org/10.1523/JNEUROSCI.5070-04.2005.
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  - Wang, Lihong, Gregory McCarthy, Allen W. Song, and Kevin S. Labar. “Amygdala activation to sad pictures during high-field (4 tesla) functional magnetic resonance imaging..” Emotion 5, no. 1 (March 2005): 12–22. https://doi.org/10.1037/1528-3542.5.1.12.
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  - Harshbarger, Todd B., and Allen W. Song. “B factor dependence of the temporal characteristics of brain activation using dynamic apparent diffusion coefficient contrast..” Magn Reson Med 52, no. 6 (December 2004): 1432–37. https://doi.org/10.1002/mrm.20293.
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  - Lascola, Christopher D., Allen W. Song, Timothy A. Haystead, David S. Warner, Katleen Verleysen, Tiffany A. Freed, and James M. Provenzale. “Changes in magnetization transfer MRI correlate with spreading depression-induced astroglial reactivity and increased protein expression in mice..” Ajr Am J Roentgenol 183, no. 6 (December 2004): 1791–97. https://doi.org/10.2214/ajr.183.6.01831791.
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  - Huettel, Scott A., Olufolajimi O. Obembe, Allen W. Song, and Marty G. Woldorff. “The BOLD fMRI refractory effect is specific to stimulus attributes: evidence from a visual motion paradigm..” Neuroimage 23, no. 1 (September 2004): 402–8. https://doi.org/10.1016/j.neuroimage.2004.04.031.
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  - Inan, Seniha, Teresa Mitchell, Allen Song, Joshua Bizzell, and Aysenil Belger. “Hemodynamic correlates of stimulus repetition in the visual and auditory cortices: an fMRI study..” Neuroimage 21, no. 3 (March 2004): 886–93. https://doi.org/10.1016/j.neuroimage.2003.10.029.
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  - Song, Allen W., and Stacey L. Gangstead. “The spatial and temporal characteristics of the apparent-diffusion-coefficient-dependent fMRI signal changes during visual stimulation..” J Neural Eng 1, no. 1 (March 2004): 32–38. https://doi.org/10.1088/1741-2560/1/1/005.
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  - Huettel, Scott A., Martin J. McKeown, Allen W. Song, Sarah Hart, Dennis D. Spencer, Truett Allison, and Gregory McCarthy. “Linking hemodynamic and electrophysiological measures of brain activity: evidence from functional MRI and intracranial field potentials..” Cereb Cortex 14, no. 2 (February 2004): 165–73. https://doi.org/10.1093/cercor/bhg115.
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  - Song, Allen, Karen Emberger, Charles Michelich, and Gregory McCarthy. “FMRI signal source analysis using diffusion-weighted spiral-in acquisition..” Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference 6 (January 2004): 4417–20. https://doi.org/10.1109/iembs.2004.1404228.
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  - Woldorff, Marty G., Chad J. Hazlett, Harlan M. Fichtenholtz, Daniel H. Weissman, Anders M. Dale, and Allen W. Song. “Functional parcellation of attentional control regions of the brain..” J Cogn Neurosci 16, no. 1 (January 2004): 149–65. https://doi.org/10.1162/089892904322755638.
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  - Chee, Michael W. L., Christopher Westphal, Joshua Goh, Steven Graham, and Allen W. Song. “Word frequency and subsequent memory effects studied using event-related fMRI..” Neuroimage 20, no. 2 (October 2003): 1042–51. https://doi.org/10.1016/s1053-8119(03)00335-5.
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  - Li, Tianlu, and Allen W. Song. “Fast functional brain signal changes detected by diffusion weighted fMRI..” Magnetic Resonance Imaging 21, no. 8 (October 2003): 829–33. https://doi.org/10.1016/s0730-725x(03)00182-6.
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  - Song, Allen W., Todd Harshbarger, Tianlu Li, Keun-Ho Kim, Kamil Ugurbil, Susumu Mori, and Dae-Shik Kim. “Functional activation using apparent diffusion coefficient-dependent contrast allows better spatial localization to the neuronal activity: evidence using diffusion tensor imaging and fiber tracking..” Neuroimage 20, no. 2 (October 2003): 955–61. https://doi.org/10.1016/S1053-8119(03)00292-1.
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  - Guo, Hua, and Allen W. Song. “Single-shot spiral image acquisition with embedded z-shimming for susceptibility signal recovery..” Journal of Magnetic Resonance Imaging : Jmri 18, no. 3 (September 2003): 389–95. https://doi.org/10.1002/jmri.10355.
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  - Weissman, D. H., B. Giesbrecht, A. W. Song, G. R. Mangun, and M. G. Woldorff. “Conflict monitoring in the human anterior cingulate cortex during selective attention to global and local object features..” Neuroimage 19, no. 4 (August 2003): 1361–68.
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  - Giesbrecht, B., M. G. Woldorff, A. W. Song, and G. R. Mangun. “Neural mechanisms of top-down control during spatial and feature attention..” Neuroimage 19, no. 3 (July 2003): 496–512.
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  - Sha, Liewei, Hua Guo, and Allen W. Song. “An improved gridding method for spiral MRI using nonuniform fast Fourier transform..” J Magn Reson 162, no. 2 (June 2003): 250–58.
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  - Pelphrey, Kevin A., Peter B. Mack, Allen Song, Güven Güzeldere, and Gregory McCarthy. “Faces evoke spatially differentiated patterns of BOLD activation and deactivation..” Neuroreport 14, no. 7 (May 23, 2003): 955–59. https://doi.org/10.1097/01.wnr.0000074345.81633.ad.
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  - Song, Allen W., and Tianlu Li. “Improved spatial localization based on flow-moment-nulled and intra-voxel incoherent motion-weighted fMRI..” Nmr Biomed 16, no. 3 (May 2003): 137–43. https://doi.org/10.1002/nbm.819.
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  - Eastwood, James D., Chad A. Holder, Patricia A. Hudgins, and Allen W. Song. “Magnetic resonance imaging with lateralized arterial spin labeling..” Magn Reson Imaging 20, no. 8 (October 2002): 583–86.
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  - Song, Allen W., Marty G. Woldorff, Stacey Gangstead, George R. Mangun, and Gregory McCarthy. “Enhanced spatial localization of neuronal activation using simultaneous apparent-diffusion-coefficient and blood-oxygenation functional magnetic resonance imaging..” Neuroimage 17, no. 2 (October 2002): 742–50.
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  - Song, Allen W., Harlan Fichtenholtz, and Marty Woldorff. “BOLD signal compartmentalization based on the apparent diffusion coefficient..” Magn Reson Imaging 20, no. 7 (September 2002): 521–25.
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  - Gangstead, Stacey L., and Allen W. Song. “On the timing characteristics of the apparent diffusion coefficient contrast in fMRI..” Magn Reson Med 48, no. 2 (August 2002): 385–88. https://doi.org/10.1002/mrm.10189.
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  - Doyon, Julien, Allen W. Song, Avi Karni, Francois Lalonde, Michelle M. Adams, and Leslie G. Ungerleider. “Experience-dependent changes in cerebellar contributions to motor sequence learning..” Proc Natl Acad Sci U S A 99, no. 2 (January 22, 2002): 1017–22. https://doi.org/10.1073/pnas.022615199.
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  - Livingston, B. P., R. L. Segal, A. Song, K. Hopkins, A. W. English, and C. C. Manning. “Functional activation of the extensor carpi radialis muscles in humans..” Arch Phys Med Rehabil 82, no. 9 (September 2001): 1164–70. https://doi.org/10.1053/apmr.2001.24919.
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  - Song, A. W. “Single-shot EPI with signal recovery from the susceptibility-induced losses..” Magn Reson Med 46, no. 2 (August 2001): 407–11.
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  - Song, A. W., and A. M. Takahashi. “Lorentz effect imaging..” Magn Reson Imaging 19, no. 6 (July 2001): 763–67.
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  - Haist, F., A. W. Song, K. Wild, T. L. Faber, C. A. Popp, and R. D. Morris. “Linking sight and sound: fMRI evidence of primary auditory cortex activation during visual word recognition..” Brain and Language 76, no. 3 (March 2001): 340–50. https://doi.org/10.1006/brln.2000.2433.
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  - Song, A. W., C. A. Popp, J. Mao, and W. T. Dixon. “fMRI: methodology--acquisition and processing..” Advances in Neurology 83 (January 2000): 177–85.
  - Berns, G. S., A. W. Song, and H. Mao. “Nonlinear spatiotemporal dynamics of functional MRI revealed by independent components analysis.” Annual International Conference of the Ieee Engineering in Medicine and Biology Proceedings 2 (December 1, 1999).
  - Doyon, J., A. W. Song, F. Lalonde, A. Karni, M. M. Adams, and L. G. Ungerleider. “Plastic changes within the cerebellum associated with motor sequence learning: afMRI study.” Neuroimage 9, no. 6 PART II (December 1, 1999).
  - Song, A. W., H. Mao, R. Muthupillai, F. Haist, and W. T. Dixon. “Segmented spin-echo pulses to increase fMRI signal: repeated intrinsic diffusional enhancement..” Magn Reson Med 42, no. 4 (October 1999): 631–35.
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  - Votaw, J. R., T. L. Faber, C. A. Popp, T. R. Henry, J. D. Trudeau, J. L. Woodard, H. Mao, J. M. Hoffman, and A. W. Song. “A confrontational naming task produces congruent increases and decreases in PET and fMRI..” Neuroimage 10, no. 4 (October 1999): 347–56. https://doi.org/10.1006/nimg.1999.0471.
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  - Berns, G. S., A. W. Song, and H. Mao. “Continuous functional magnetic resonance imaging reveals dynamic nonlinearities of "dose-response" curves for finger opposition..” J Neurosci 19, no. 14 (July 15, 1999).
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  - Mao, H., R. Muthupillai, P. R. Kennedy, C. A. Popp, and A. W. Song. “Clinical application of fMRI: Motor cortex activation in a paralysed patient.” Medicamundi 42, no. 3 (December 1, 1998): 19–22.
  - Popp, C. A., J. R. Votaw, T. L. Faber, T. R. Henry, J. D. Trudeau, J. Woodard, H. Mao, R. M. Woods, J. M. Hoffman, and A. W. Song. “fMRI and PET studies of a visual confrontation naming task.” Neuroimage 7, no. 4 PART II (December 1, 1998).
  - Song, A. W., W. T. Dixon, H. Mao, and C. P. Weingarten. “The use of Repeated Intrinsic Diffuional Enhancement (RIDE) to increase fMRI contrast.” Neuroimage 7, no. 4 PART II (December 1, 1998).
  - Popp Weingarten, C. A., A. W. Song, E. C. Wong, G. Cotsonis, and J. S. Hyde. “T1-selective diffusion weighted fMRI at 1.5 T.” Nmr Biomed. (Uk) 11, no. 8 (1998): 405–13. https://doi.org/10.1002/(SICI)1099-1492(199812)11:83.0.CO;2-8.
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  - Doyon, J., A. Karni, A. W. Song, M. M. Adams, J. M. Maisog, and L. G. Ungerleider. “Dynamic changes in the motor cortical areas, striatum and cerebellum during explicit and implicit learning of a visuomotor skill: A fMRI study.” Neuroimage 5, no. 4 PART II (December 1, 1997).
  - Song, A. W., S. D. Wolff, R. S. Balaban, and P. Jezzard. “The effect of off-resonance radiofrequency pulse saturation on fMRI contrast..” Nmr Biomed 10, no. 4–5 (June 1997): 208–15.
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  - Jezzard, P., and A. W. Song. “Technical foundations and pitfalls of clinical fMRI..” Neuroimage 4, no. 3 Pt 3 (December 1996): S63–75. https://doi.org/10.1006/nimg.1996.0056.
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  - Song, A. W., E. C. Wong, S. G. Tan, and J. S. Hyde. “Diffusion weighted fMRI at 1.5 T..” Magn Reson Med 35, no. 2 (February 1996): 155–58.
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  - Wong, E. C., R. W. Cox, and A. W. Song. “Optimized isotropic diffusion weighting..” Magn Reson Med 34, no. 2 (August 1995): 139–43.
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  - Song, A. W., E. C. Wong, and J. S. Hyde. “Echo-volume imaging..” Magn Reson Med 32, no. 5 (November 1994): 668–71.
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- Conference Papers
  - Helmer, K. G., M. -. C. Chou, R. I. Preciado, B. Gimi, N. K. Rollins, A. Song, J. Turner, and S. Mori. “Multi-site study of diffusion metric variability: effects of site, vendor, field strength, and echo time on regions-of-interest and histogram-bin analyses..” In Proc Spie Int Soc Opt Eng, Vol. 9788, 2016. https://doi.org/10.1117/12.2217445.
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  - Helmer, K. G., M. -. C. Chou, R. I. Preciado, B. Gimi, N. K. Rollins, A. Song, J. Turner, and S. Mori. “Multi-site Study of Diffusion Metric Variability: Characterizing the Effects of Site, Vendor, Field Strength, and Echo Time using the Histogram Distance..” In Proc Spie Int Soc Opt Eng, Vol. 9788, 2016. https://doi.org/10.1117/12.2217449.
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Teaching & Mentoring
Recent Courses
- BME 493: Projects in Biomedical Engineering (GE) 2017

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